A code within the genetic code: codon usage regulates co-translational protein folding

Y Liu - Cell Communication and Signaling, 2020 - Springer
The genetic code is degenerate, and most amino acids are encoded by two to six
synonymous codons. Codon usage bias, the preference for certain synonymous codons, is a …

Understanding the contribution of synonymous mutations to human disease

ZE Sauna, C Kimchi-Sarfaty - Nature Reviews Genetics, 2011 - nature.com
Synonymous mutations—sometimes called'silent'mutations—are now widely acknowledged
to be able to cause changes in protein expression, conformation and function. The recent …

A critical analysis of codon optimization in human therapeutics

VP Mauro, SA Chappell - Trends in molecular medicine, 2014 - cell.com
Codon optimization describes gene engineering approaches that use synonymous codon
changes to increase protein production. Applications for codon optimization include …

Exposing synonymous mutations

RC Hunt, VL Simhadri, M Iandoli, ZE Sauna… - Trends in Genetics, 2014 - cell.com
Synonymous codon changes, which do not alter protein sequence, were previously thought
to have no functional consequence. Although this concept has been overturned in recent …

Performance comparison of exome DNA sequencing technologies

MJ Clark, R Chen, HYK Lam, KJ Karczewski… - Nature …, 2011 - nature.com
Whole exome sequencing by high-throughput sequencing of target-enriched genomic DNA
(exome-seq) has become common in basic and translational research as a means of …

Rock, scissors, paper: How RNA structure informs function

SM Assmann, HL Chou, PC Bevilacqua - The Plant Cell, 2023 - academic.oup.com
RNA can fold back on itself to adopt a wide range of structures. These range from relatively
simple hairpins to intricate 3D folds and can be accompanied by regulatory interactions with …

Performance comparison of whole-genome sequencing platforms

HYK Lam, MJ Clark, R Chen, R Chen, G Natsoulis… - Nature …, 2012 - nature.com
Whole-genome sequencing is becoming commonplace, but the accuracy and completeness
of variant calling by the most widely used platforms from Illumina and Complete Genomics …

Genetic differences among ethnic groups

T Huang, Y Shu, YD Cai - BMC genomics, 2015 - Springer
Background Many differences between different ethnic groups have been observed, such as
skin color, eye color, height, susceptibility to some diseases, and response to certain drugs …

Predicting functional effects of synonymous variants: a systematic review and perspectives

Z Zeng, Y Bromberg - Frontiers in genetics, 2019 - frontiersin.org
Recent advances in high-throughput experimentation have put the exploration of genome
sequences at the forefront of precision medicine. In an effort to interpret the sequencing …

The challenges, advantages and future of phenome‐wide association studies

SJ Hebbring - Immunology, 2014 - Wiley Online Library
Over the last decade, significant technological breakthroughs have revolutionized human
genomic research in the form of genome‐wide association studies (GWAS s). GWAS s have …